The protein encoded by this gene is believed to be a secretory protein. It has regions of similarity to hydrophilic segments of yeast mannosyltransferases. Its expression is ubiquitous and the gene appears to be relatively conserved among mammals. Alternate splicing results in both coding and non-coding variants. A pseudogene of this gene is located on chromosome 15. [provided ... See more...

Aliases for SDF2 Gene

Aliases for SDF2 Gene

  • Stromal Cell Derived Factor 2 2 3 5
  • Stromal Cell-Derived Factor 2 2 3 4
  • SDF-2 3 4

External Ids for SDF2 Gene

Previous GeneCards Identifiers for SDF2 Gene

  • GC17M026820
  • GC17M028875
  • GC17M027121
  • GC17M023999
  • GC17M026975
  • GC17M023184
  • GC17M028649
  • GC17M029282
  • GC17M029382
  • GC17M028650
  • GC17M028739
  • GC17M028829
  • GC17M028914
  • GC17M029007
  • GC17M029111
  • GC17M029193

Summaries for SDF2 Gene

Entrez Gene Summary for SDF2 Gene

  • The protein encoded by this gene is believed to be a secretory protein. It has regions of similarity to hydrophilic segments of yeast mannosyltransferases. Its expression is ubiquitous and the gene appears to be relatively conserved among mammals. Alternate splicing results in both coding and non-coding variants. A pseudogene of this gene is located on chromosome 15. [provided by RefSeq, Dec 2011]

GeneCards Summary for SDF2 Gene

SDF2 (Stromal Cell Derived Factor 2) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include dolichyl-phosphate-mannose-protein mannosyltransferase activity. An important paralog of this gene is SDF2L1.

Additional gene information for SDF2 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SDF2 Gene

Genomics for SDF2 Gene

GeneHancer (GH) Regulatory Elements for SDF2 Gene

Promoters and enhancers for SDF2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J028660 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 750.6 -0.1 -107 3.8 E2F8 SIN3A ZBTB40 SREBF1 RBPJ SMARCE1 POLR2A USF2 ATF1 CREB1 SUPT6H SDF2 lnc-KIAA0100-2 lnc-SDF2-3 ENSG00000264577 NUFIP2 LOC100421028 SEZ6 ENSG00000265205 GIT1
GH17J028944 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 29.8 -287.2 -287150 8.9 SIN3A ZNF24 SP1 ZBTB40 CTCF SIX5 FOXA1 SMARCE1 POLR2A NR2F6 PHF12 PIPOX lnc-SEZ6-3 ENSG00000264577 NUFIP2 SUPT6H ENSG00000265908 ENSG00000265205 SDF2 RPL23A
GH17J028901 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 29.7 -240.3 -240349 2.3 PPP1R10 ZNF785 SIN3A ZNF24 ZBTB40 SP1 CTCF ZBTB6 SMARCE1 RBPJ DHRS13 lnc-PHF12-1 SUPT6H ENSG00000264577 NUFIP2 PHF12 ENSG00000265908 LOC101927018 SDF2 TMEM199
GH17J029586 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 25.4 -928.4 -928413 8.4 SIN3A ZBTB40 CTCF SIX5 ZBTB6 SMARCE1 POLR2A USF2 CREB1 HCFC1 ANKRD13B GIT1 ENSG00000264647 SUPT6H NUFIP2 ENSG00000264577 GOSR1 PHF12 TP53I13 ENSG00000265908
GH17J028597 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 31.1 +63.1 63138 3.1 ZBTB40 SP1 SMARCE1 POLR2A HDAC2 NR2F6 CREB1 HCFC1 ZNF362 NFYC RF00017-2323 SPAG5 SPAG5-AS1 ENSG00000264577 ENSG00000265908 NUFIP2 SUPT6H PHF12 ENSG00000265205 ENSG00000264290
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SDF2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SDF2 gene promoter:
  • C/EBPalpha
  • FAC1
  • GATA-1
  • GATA-2
  • GATA-3
  • GR
  • GR-alpha
  • Nkx6-1
  • p53
  • Pax-6

Genomic Locations for SDF2 Gene

Genomic Locations for SDF2 Gene
chr17:28,648,356-28,662,189
(GRCh38/hg38)
Size:
13,834 bases
Orientation:
Minus strand
chr17:26,975,374-26,989,207
(GRCh37/hg19)
Size:
13,834 bases
Orientation:
Minus strand

Genomic View for SDF2 Gene

Genes around SDF2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SDF2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SDF2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SDF2 Gene

Proteins for SDF2 Gene

  • Protein details for SDF2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99470-SDF2_HUMAN
    Recommended name:
    Stromal cell-derived factor 2
    Protein Accession:
    Q99470
    Secondary Accessions:
    • Q9BQ79

    Protein attributes for SDF2 Gene

    Size:
    211 amino acids
    Molecular mass:
    23026 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SDF2 Gene

Post-translational modifications for SDF2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SDF2 Gene

Antibody Products

  • Abcam antibodies for SDF2
  • Santa Cruz Biotechnology (SCBT) Antibodies for SDF2

No data available for DME Specific Peptides for SDF2 Gene

Domains & Families for SDF2 Gene

Gene Families for SDF2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for SDF2 Gene

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SDF2 Gene

GenScript: Design optimal peptide antigens:
  • Stromal cell-derived factor 2, isoform CRA_c (Q6IBU4_HUMAN)
  • Stromal cell-derived factor 2 (SDF2_HUMAN)
genes like me logo Genes that share domains with SDF2: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SDF2 Gene

Function for SDF2 Gene

Molecular function for SDF2 Gene

GENATLAS Biochemistry:
stromal cell-derived factor 2

Phenotypes From GWAS Catalog for SDF2 Gene

Gene Ontology (GO) - Molecular Function for SDF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004169 dolichyl-phosphate-mannose-protein mannosyltransferase activity IBA 21873635
genes like me logo Genes that share ontologies with SDF2: view
genes like me logo Genes that share phenotypes with SDF2: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SDF2

CRISPR Products

miRNA for SDF2 Gene

miRTarBase miRNAs that target SDF2

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SDF2 Gene

Localization for SDF2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SDF2 Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SDF2 gene
Compartment Confidence
extracellular 5
endoplasmic reticulum 4
lysosome 0

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SDF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space TAS 8918255
GO:0005789 endoplasmic reticulum membrane IBA 21873635
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with SDF2: view

Pathways & Interactions for SDF2 Gene

PathCards logo

SuperPathways for SDF2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SDF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006486 protein glycosylation TAS 8918255
GO:0035269 protein O-linked mannosylation IBA 21873635
GO:0071712 ER-associated misfolded protein catabolic process IBA 21873635
genes like me logo Genes that share ontologies with SDF2: view

No data available for Pathways by source and SIGNOR curated interactions for SDF2 Gene

Drugs & Compounds for SDF2 Gene

(1) Drugs for SDF2 Gene - From: DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Malonate Ion Experimental Pharma Target 0
genes like me logo Genes that share compounds with SDF2: view

Transcripts for SDF2 Gene

mRNA/cDNA for SDF2 Gene

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SDF2 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b · 7c · 7d · 7e · 7f
SP1: - - - -
SP2: - -
SP3: -
SP4: - - - - - -
SP5: - - - -
SP6: - - - - - - -
SP7:

Relevant External Links for SDF2 Gene

GeneLoc Exon Structure for
SDF2
ECgene alternative splicing isoforms for
SDF2

Expression for SDF2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SDF2 Gene

Protein differential expression in normal tissues from HIPED for SDF2 Gene

This gene is overexpressed in Bone (7.5), Placenta (7.3), and Fetal testis (6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SDF2 Gene



Protein tissue co-expression partners for SDF2 Gene

NURSA nuclear receptor signaling pathways regulating expression of SDF2 Gene:

SDF2

SOURCE GeneReport for Unigene cluster for SDF2 Gene:

Hs.514036

Evidence on tissue expression from TISSUES for SDF2 Gene

  • Lung(4.5)
genes like me logo Genes that share expression patterns with SDF2: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SDF2 Gene

Orthologs for SDF2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SDF2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SDF2 33 32
  • 99.05 (n)
OneToOne
dog
(Canis familiaris)
Mammalia SDF2 33 32
  • 93.21 (n)
OneToOne
cow
(Bos Taurus)
Mammalia SDF2 33 32
  • 93.05 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Sdf2 17 33 32
  • 91.31 (n)
rat
(Rattus norvegicus)
Mammalia Sdf2 32
  • 90.52 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SDF2 33
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SDF2 33
  • 80 (a)
OneToOne
chicken
(Gallus gallus)
Aves SDF2 33 32
  • 72.67 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SDF2 33
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sdf2 32
  • 71.82 (n)
Str.11212 32
African clawed frog
(Xenopus laevis)
Amphibia Xl.15478 32
zebrafish
(Danio rerio)
Actinopterygii sdf2 33 32
  • 68.9 (n)
OneToOne
wufk23f01 32
fruit fly
(Drosophila melanogaster)
Insecta CG11999 33 34 32
  • 55.56 (n)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001749 32
  • 54.43 (n)
worm
(Caenorhabditis elegans)
Secernentea R12E2.13 33 34 32
  • 54.1 (n)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons SDF2 32
  • 49.73 (n)
rice
(Oryza sativa)
Liliopsida Os08g0440500 32
  • 50.48 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.11079 33
  • 54 (a)
OneToMany
Cin.4577 32
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4577 32
Species where no ortholog for SDF2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SDF2 Gene

ENSEMBL:
Gene Tree for SDF2 (if available)
TreeFam:
Gene Tree for SDF2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SDF2: view image

Paralogs for SDF2 Gene

Paralogs for SDF2 Gene

(1) SIMAP similar genes for SDF2 Gene using alignment to 4 proteins:

  • SDF2_HUMAN
  • K7ELH6_HUMAN
  • K7ELI9_HUMAN
  • Q6IBU4_HUMAN

Pseudogenes.org Pseudogenes for SDF2 Gene

genes like me logo Genes that share paralogs with SDF2: view

Variants for SDF2 Gene

Sequence variations from dbSNP and Humsavar for SDF2 Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000191219 -- 28,651,229(-) T/A/C intron_variant
rs1000726524 -- 28,658,198(-) T/G intron_variant
rs1000797521 -- 28,647,850(-) G/A downstream_transcript_variant
rs1000864247 -- 28,661,006(-) T/C intron_variant
rs1000977982 -- 28,655,557(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SDF2 Gene

Variant ID Type Subtype PubMed ID
nsv1064087 CNV gain 25217958

Variation tolerance for SDF2 Gene

Residual Variation Intolerance Score: 41.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.97; 36.51% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SDF2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SDF2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SDF2 Gene

Disorders for SDF2 Gene

Additional Disease Information for SDF2

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SDF2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SDF2 Gene

Publications for SDF2 Gene

  1. Isolation and characterization of a novel secretory protein, stromal cell-derived factor-2 (SDF-2) using the signal sequence trap method. (PMID: 8918255) Hamada T … Honjo T (Gene 1996) 2 3 4 23 56
  2. Phenotype-genotype interactions on renal function in type 2 diabetes: an analysis using structural equation modelling. (PMID: 19479237) Song XY … Chan JC (Diabetologia 2009) 3 43 56
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 56
  4. Quantitative mapping of RNA-mediated nuclear estrogen receptor β interactome in human breast cancer cells. (PMID: 29509190) Giurato G … Tarallo R (Scientific data 2018) 3 56
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 56

Products for SDF2 Gene

Sources for SDF2 Gene